Evidence map›Paper›PMID 31337850›Full record

ArticleScientific reports2019

Modeling the binding of diverse ligands within the Ah receptor ligand binding domain.

Sara Giani Tagliabue, Samantha C Faber, Stefano Motta, Michael S Denison, Laura Bonati

Open access · goldAbstract read
In one paragraph

Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.

0numbers the graph read from it
0cells of the map it votes in
49citing papers in PubMed
10.2field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

49 citing papers in PubMed, 99 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. Review
  5. Review
  6. Review
  7. Article
  8. Review
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Dimerization Rules of Mammalian PAS Proteins.Journal of molecular biology · 2024
    Review
  15. Article
  16. Article
  17. Article
  18. TCDD-Induced Allosteric Perturbation of the AhR:ARNT Binding to DNA.International journal of molecular sciences · 2023
    Article
  19. Article
  20. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors at 3 institutions in 2 countries.

Sara Giani TagliabueDepartment of Earth and Environmental Sciences, University of Milano-Bicocca, Milan, Italy.ORCID http://orcid.org/0000-0002-2393-2527
Samantha C FaberCurriculum in Toxicology and Environmental Medicine, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Stefano MottaDepartment of Earth and Environmental Sciences, University of Milano-Bicocca, Milan, Italy.ORCID http://orcid.org/0000-0002-0812-6834
Michael S DenisonDepartment of Environmental Toxicology, University of California, Davis, CA, USA.
Laura BonatiDepartment of Earth and Environmental Sciences, University of Milano-Bicocca, Milan, Italy. laura.bonati@unimib.it.ORCID http://orcid.org/0000-0003-3028-0368
University of Milano-Bicocca · ITUniversity of California, Davis · USUniversity of North Carolina at Chapel Hill · US

Funding

ENVIRONMENTAL TOXICOLOGYT32ES007059 · NIEHS · UNIVERSITY OF CALIFORNIA DAVIS · PI Laura S Van Winkle · 1985 to 2026
$7.9M
RECOMBINANT DETECTION SYSTEMS FOR DIOXIN LIKE CHEMICALSR01ES007685 · NIEHS · UNIVERSITY OF CALIFORNIA DAVIS · PI DENISON, MICHAEL STEVEN · 1995 to 2019
$4.7M
NIEHS NIH HHS R01 ES007685NIEHS NIH HHS T32 ES007059
6 · The paper itself

Abstract

The Ah receptor (AhR) is a ligand-dependent transcription factor belonging to the basic helix-loop-helix Per-Arnt-Sim (bHLH-PAS) superfamily. Binding to and activation of the AhR by a variety of chemicals results in the induction of expression of diverse genes and production of a broad spectrum of biological and toxic effects. The AhR also plays important roles in several physiological responses, which has led it to become a novel target for the development of therapeutic drugs. Differences in the interactions of various ligands within the AhR ligand binding domain (LBD) may contribute to differential modulation of AhR functionality. We combined computational and experimental analyses to investigate the binding modes of a group of chemicals representative of major classes of AhR ligands. On the basis of a novel computational approach for molecular docking to the homology model of the AhR LBD that includes the receptor flexibility, we predicted specific residues within the AhR binding cavity that play a critical role in binding of three distinct groups of chemicals. The prediction was validated by site-directed mutagenesis and evaluation of the relative ligand binding affinities for the mutant AhRs. These results provide an avenue for understanding ligand modulation of the AhR functionality and for rational drug design.

Indexed as

Models, MolecularBinding SitesHumansLigandsMolecular Docking SimulationProtein BindingReceptors, Aryl HydrocarbonLigandsReceptors, Aryl Hydrocarbon

Identifiers

PMID31337850
PMCPMC6650409
OpenAlexW2963940223

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.